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Jim Bosley


Clermont, Bosley LLC

Last seen: 2 days ago |  Active since 2017

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Warning: X does not support locale en_US.UTF-8
"This is a warning message that can be disregarded and it has no impact on the functionality of MATLAB. A future update for R202...

1 year ago | 0

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How can I format plot and symbol lines and colors in Simbiology Model Analyzer
Use scenario 1) Simulate PK model with push dose, with all states except concentration unchecked. 2) Check "Keep Results fro...

1 year ago | 1 answer | 0

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failed to load module "canberra-gtk-module"
In Ubuntu linux, I get this message. But I have the most recent install of libcanberra. This has been a problem for the last...

1 year ago | 1 answer | 1

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Question


Is there a way to turn off the slider in simbiology text boxes? They are ugly and worse than useless if you are using the text boxes for labels.
What the summary said. At some point, Mathworks added sliders to the Simbiology text boxes. So models I created a while back a...

2 years ago | 1 answer | 0

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Simbiology "Project Save Error"
For some reason I cannot save simbiology projects. When I try (for new files, and files I've loaded) I'm now getting: "Project...

2 years ago | 2 answers | 0

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Answered
"The support package is not compatible with your version of MATLAB or operating system." for installing minGW in R2022a
Thanks for the help, gentlemen. Ok, let me be more clear than I was. From matlab compiler page I understand that all I have to...

2 years ago | 0

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Simbiology reaction stoichiometry: R + E ==> P + E, or the simpler R ==> P?
tldr; Is there any benefit or disadvantage to writing the stoichiometry reactions of catalyzed by an enzyme as R + E --> P + ...

2 years ago | 1 answer | 0

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Answered
install command on linux doesn't bring up installer - again
My bad, Philip Wesley already answered this. Answer is here. In a terminal: xhost +SI:localuser:root Then sudo ./install

2 years ago | 0

| accepted

Question


"The support package is not compatible with your version of MATLAB or operating system." for installing minGW in R2022a
With some help I got matlab installed in ubuntu. Works fine, however, I get the warning (words to the effect): "You should ins...

2 years ago | 3 answers | 0

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install command on linux doesn't bring up installer - again
I'm having the same problem that others have had (same summary) but the solution did not work. I download the zip file. I unzi...

2 years ago | 2 answers | 0

2

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Answered
simbiology duplicates sbml id tokens when "duplicate" is used
Florian, Thanks! To remind folks of the use case here, if one creates a model in Simbiology and uses copy/paste on the graphica...

2 years ago | 0

Question


simbiology duplicates sbml id tokens when "duplicate" is used
Not sure if this is intended, but I believe that it does highlight a bug. Say I create a model in simbiology, with species A an...

2 years ago | 2 answers | 0

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Question


sbml export does not appear to export modifiers
In a description of the SBML standard, namely Hucka et al., The Systems Biology Markup Language (SBML): Language Specification f...

2 years ago | 1 answer | 0

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Question


Any progress on relaxing the constraints on species units?
In SimBiology, there is a limited set of units one case use. Amount, or concentration. This is often inconvenient, as (for ex...

3 years ago | 1 answer | 0

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Answered
Matlab unable to install R2021b: "unable to write to selected folder" in Ubuntu 20.04
A bit more detail - thanks to Philip (see above) for the answer. Apparently in a terminal window you must run xhost +SI:localu...

3 years ago | 15

| accepted

Question


Matlab unable to install R2021b: "unable to write to selected folder" in Ubuntu 20.04
Trying to install R2021b on the system drive. Using Ubuntu 20.04. 384 Gb available. I download matlab_R2020b_glnxa64.zip an...

3 years ago | 1 answer | 2

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Is there any way to export a simbiology model diagram in high resolution?
I have a fairly large and complex simbiology model. I'd like to export the graphical model diagram in a presentation quality ti...

3 years ago | 1 answer | 0

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When will sbmlimport support sbml level 3?
Would be useful to know. I believe 2020b only supports level 2, correct? Has anyone else run into having to use an sblm level ...

4 years ago | 1 answer | 1

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Semicolons in SimBiology species names: just characters, or functionally active?
I was looking at Sven Mesecke's implementation of the Renin Angiotensin Aldosterone System model of Lo et al. 2011. (For those ...

4 years ago | 1 answer | 0

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Any simulation speed differences between models loaded with SimBiology() vs sbioloadproject?
The question is in the title. I haven't seen much difference in numerical efficiency between the same model opened in sbioloadpr...

4 years ago | 1 answer | 0

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Namespace and other html / xml information in SimBiology Notes
Simbiology notes allows (requires?) one to use html for nicely formatted notes. For normal documentation use, where there will b...

5 years ago | 1 answer | 0

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Constant parameter setting throws error, or... if I don't set a parameter to constant, but don't change it, does it stay constant?
In another thread, I asked about using subject- (group- in SimBiology) dependent parameter values to allow fitting of one part o...

5 years ago | 1 answer | 0

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Answered
Icons for pinned SimBiology(R) graphics
Repeating as a partial answer: As to the last point, found this: Simbiology / Preferences / Indicators Show indicator when a ...

5 years ago | 0

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Icons for pinned SimBiology(R) graphics
When building models graphically usign the dashboard, one can pin graphical elements. This prevents inadvertently messing up a c...

5 years ago | 1 answer | 0

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deleting or removing variant using variant array handle gives unexpected results.
If I have a variable that contains a SimBiology parameter object, and I change it, the object reflects that change: par1 = addp...

5 years ago | 1 answer | 0

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Can I force Matlab to wait 'til it finishes one command to run another?
I have a script that loads a SimBiology model using the simbiology() command. Then I try to get a handle for the model simbiol...

5 years ago | 1 answer | 0

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Answered
Is it possible to get the group (that is the subject) number in sbiofit to do a lookup?
One last thing. I tested using the group to set parameters. Works fine. So a repeat assignment rule is just pv = setparvalu(...

5 years ago | 0

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sbiofitmixed/ nlmefit and weighting two dependent variables
I am fitting a trial with two output measurements (for now). These are CONC1 and CONC2. Supposing that they have very differen...

5 years ago | 0 answers | 0

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Answered
Is it possible to get the group (that is the subject) number in sbiofit to do a lookup?
Jérémy Glad if the ideas help. I enjoy the interactions with you, Arthur, Pax, and others on your team. I just want to clarif...

5 years ago | 0

Question


How can I plot only one fitted variable after using sbiofit?
I'm fitting a model to a dataset. I have two variables I'm fitting simultaneously: the therapy, and the quantity of an endogeno...

5 years ago | 2 answers | 0

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